GgaINT0125972 @ galGal3
Intron Retention
Gene
ENSGALG00000001002 | RABEPK
Description
NA
Coordinates
chr17:10312215-10312911:+
Coord C1 exon
chr17:10312215-10312364
Coord A exon
chr17:10312365-10312615
Coord C2 exon
chr17:10312616-10312911
Length
251 bp
Sequences
Splice sites
5' ss Seq
TAGGTAGGG
5' ss Score
6.53
3' ss Seq
AATGTATTTTTGTACTGCAGAGG
3' ss Score
6.97
Exon sequences
Seq C1 exon
CCGACATGAAGTGGGTTAAGATAGCAGCCACTGGTGATGTGCCAGGAGGACGGGCATCCCACTCATCGGCTGTGTTTAAAGACCACTTATACATTTTTGGTGGAATAGGTCCAGATGGGACACTAGATACTACGTACAAGTATCATATAG
Seq A exon
GTAGGGAGAGTTCTCTCAGCTTTGTAATGGTAAATGCGAGTCTGTTTGAAAATACATTGTGGTTTTAGTTCCTAGGCTTCATTCTCTTAGCAATCAGTGTCACTGCACTGGAAATGTATCAGTACAAGACCTAATAGTTGAGGCTAGATGGTACTGCAGAGTAGCGTATAGTTAGCAATGGTACCGCTCCAGCATGGTTTTTGAGTCTGCGAAGCGATGCTTAAAGATGTGAATGTATTTTTGTACTGCAG
Seq C2 exon
AGGAGCAGCAGTGGACACTCCTGCAGTTTGATTCTCCTCTGCCTGCTGGGAGACTGGACCATGCCATGTGTGTCATTCCCTGGCGGGTTGGCAAAAATGGTGACGCAGCAGCTGTCTCTAAGGAAGATAAAGCTGAGCCAACTGCATCAGCTGGTGACAGAGCTGACCACCTCTGCAGAGGCCAGGATAAGAAGGCGTGTACTGAAGACACAATGATGCATCTGCTGTTAATATTTGGTGGGATGGATACACAAGCAGAGATATATAGGGACTGCATTGTAAGTTTGATTGAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001002:ENSGALT00000001479:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.184
Domain overlap (PFAM):
C1:
PF134151=Kelch_3=PD(50.0=49.0),PF134151=Kelch_3=PU(48.0=47.1)
A:
NA
C2:
PF134151=Kelch_3=PD(50.0=25.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATAGCAGCCACTGGTGATGTG
R:
CTCTGTCACCAGCTGATGCAG
Band lengths:
292-543
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]